Resources
EM validation services
• Fourier Shell Correlation (FSC) server
• Tilt-pair validation server
Test Data
2D picked particle sets
Name | Description | Image size | Voxel size | Format |
---|---|---|---|---|
Birkbeck_GroEL_MDH_MODEL | 3 stacks of 2781 model images each with different SNR | 256x256 | 1.4Å | CCP4 |
Birkbeck_GroEL_MDH_REAL | 2781 CTF-corrected GroEL-MDF images | 160x160 | 2.8Å | Spider |
SPIDER_FRANK_data | 70S E. coli ribosome with (image 1-5000) and without (images 5001-10000) Elongation factor G (EF-G) provided by Haixiao Gao and J Frank. | 130x130 | 2.82Å | Spider |
PDBeShape
Name | Description | Format | Size |
---|---|---|---|
PDBeShape test set | 200 entries of eukaryotic ribosomes, prokaryotic ribosomes, chaperonines, and viruses | Tar | 27 Gb |
Pairs of 3D volumes for testing FSC server
Test case | Voxel size | Map 1 | Map 2 | Result |
---|---|---|---|---|
GroEL dataset publicly available (Stagg et al., J. Struct. Biol. 163:29-39, 2008) |
1.63 Å | 14 MB (MRC format) download | 14 MB (MRC format) download | View FSC plot |
Datasets for testing Tilt-pair validation server
Parameter | Icosahedral Bacillus stearothermophilus pyruvate dehydrogenase E2 core, 1.5 MDa, Rosenthal and Henderson, 2003 | Chicken anemia virus (CAV), 2.7 MDa, Crowther et al., 2003 | ß-galactosidase, 450 kDa, Chen et al., 2013 |
---|---|---|---|
Map | e2map.mrc | cav_3d.mrc | Bgal_3d.mrc |
Untilted stack | stack1.mrc | cav6216_stk.mrc | Bgal_untilt_stk.mrc |
Parameters | stack1.par | cav6216.par | Bgal_untilt.par |
Parameter file type | Frealign | Frealign | Frealign |
Tilted stack | stack2.mrc | cav6217_stk.mrc | Bgal_tilt_stk.mrc |
Voxel size | 4.98 Å | 3.62 Å | 2.98 Å |
Mask radius | 20 pixels | 24 pixels | 30 pixels |
Tilt range | (-20°, 20°) | (-30°, 30°) | (-20°, 20°) |
Resolution range | (100 Å, 15 Å) | (100 Å, 25 Å) | (150 Å, 35 Å) |
Voltage | 300 | 300 | 80 |
Defocus | 59000 | 29000 | 31500 |
Spherical aberration | 2 mm | 2 mm | 2 mm |
Amplitude contrast | 0.07 | 0 | 0 |
Results | View | View | View |
Quick links
Recent Entries
(Show all)Structure of HCoV-HKU1C spike in the functionally anchored-3up conformation with 3TMPRSS2
Structure of HCoV-HKU1C spike in the functionally anchored-2up conformation with 2TMPRSS2
Structure of HCoV-HKU1A spike in the functionally anchored-3up conformation with 3TMPRSS2
Local structure of HCoV-HKU1C spike in complex with TMPRSS2 and glycan
Structure of HCoV-HKU1C spike in the functionally anchored-3up conformation with 2TMPRSS2
Local structure of HCoV-HKU1A spike in complex with TMPRSS2 and glycan
Structure of HCoV-HKU1C spike in the glycan-activated-closed conformation
Structure of HCoV-HKU1C spike in the glycan-activated-2up conformation
Structure of HCoV-HKU1C spike in the glycan-activated-1up conformation
Structure of HCoV-HKU1C spike in the glycan-activated-3up conformation
ICP1 Csy-dsDNA-Cas1-Cas2/3 complex (fully assembled form), C2 symmetry
CryoEM structure of the transketolase ANIP from Streptomyces hygrospinosus
ICP1 Csy-dsDNA-Cas1-Cas2/3 complex (fully assembled form) composited structure with C1 symmetry
Trimeric prM/E spike of Tick-borne encephalitis virus immature particle
Cryo-electron tomogram of small unilamellar vesicles decorated with poliovirus protein 2C
Archaellum filament from the Halobacterium salinarum deltaAgl27 strain
Cryo EM map of the type 2A polymorph of alpha-synuclein at pH 7.0.
Tick-borne encephalitis virus (strain Neudoerfl) immature particle
Archaellum filament from the Halobacterium salinarum deltaAgl26 strain
Structure of human terminal uridylyltransferase 4 (TUT4, ZCCHC11) in complex with pre-let7g miRNA and Lin28A
Subtomogram average of 80S ribosomes in S. cerevisiae under acute glucose starvation
Cryo EM structure of the type 3B polymorph of alpha-synuclein at low pH.
DIV 1 hippocampal neuron (weighted back-projection and greyscale segmentation)
MicroED structure of SARS-CoV-2 main protease (MPro/3CLPro) with missing cone eliminated by suspended drop
ApoRF3 bound to an E. coli non-rotated ribosome termination complex, from focused classification and refinement (State I-B)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State I-A)
RF3-GDPCP bound to an E. coli rotated ribosome, from focused classification and refinement (State II-C)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State II-D)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with apoRF3, RF1, P- and E-site tRNAPhe (State I-B)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF3-GDPCP, RF1, P- and E-site tRNAPhe (Composite state II-A)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF3-GDPCP, RF1, P- and E-site tRNAPhe (State II-A)
Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-C)
Phosphorylated, ATP-bound, E1371Q human cystic fibrosis transmembrane conductance regulator (E1371Q-CFTR)
Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin
RF3-GDPCP bound to an E. coli rotated ribosome, from focused classification and refinement (State II-B)
Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with apoRF3, RF1, P- and E-site tRNAPhe (Composite state I-B)
Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (State II-C)
Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-B)
Complex of NPR1 ectodomain and REGN5381 Fab in an active-like state with no ANP bound
Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (State II-B)
Phosphorylated, ATP-bound, inhibitor 172-bound E1371Q human cystic fibrosis transmembrane conductance regulator
RF3-GDPCP bound to an E. coli non-rotated ribosome termination complex, from focused classification and refinement (State II-A)
Complex of NPR1 ectodomain with ANP plus an allosteric activating antibody, REGN5381
Structure of HCoV-HKU1C spike in the functionally anchored-1up conformation with 1TMPRSS2
Cryo-EM structure of human ABCC4 in complex with ANP-bound in NBD1 and METHOTREXATE